Multi-omics data integration, interpretation, and its application

I Subramanian, S Verma, S Kumar… - … and biology insights, 2020 - journals.sagepub.com
To study complex biological processes holistically, it is imperative to take an integrative
approach that combines multi-omics data to highlight the interrelationships of the involved …

Integrative proteogenomic characterization of hepatocellular carcinoma across etiologies and stages

CKY Ng, E Dazert, T Boldanova, M Coto-Llerena… - Nature …, 2022 - nature.com
Proteogenomic analyses of hepatocellular carcinomas (HCC) have focused on early-stage,
HBV-associated HCCs. Here we present an integrated proteogenomic analysis of HCCs …

Histopathologic and proteogenomic heterogeneity reveals features of clear cell renal cell carcinoma aggressiveness

Y Li, TSM Lih, SM Dhanasekaran, R Mannan, L Chen… - Cancer Cell, 2023 - cell.com
Clear cell renal cell carcinomas (ccRCCs) represent∼ 75% of RCC cases and account for
most RCC-associated deaths. Inter-and intratumoral heterogeneity (ITH) results in varying …

[HTML][HTML] Proteogenomic characterization identifies clinically relevant subgroups of intrahepatic cholangiocarcinoma

L Dong, D Lu, R Chen, Y Lin, H Zhu, Z Zhang, S Cai… - Cancer cell, 2022 - cell.com
We performed proteogenomic characterization of intrahepatic cholangiocarcinoma (iCCA)
using paired tumor and adjacent liver tissues from 262 patients. Integrated proteogenomic …

Human-iPSC-derived cardiac stromal cells enhance maturation in 3D cardiac microtissues and reveal non-cardiomyocyte contributions to heart disease

E Giacomelli, V Meraviglia, G Campostrini, A Cochrane… - Cell stem cell, 2020 - cell.com
Cardiomyocytes (CMs) from human induced pluripotent stem cells (hiPSCs) are functionally
immature, but this is improved by incorporation into engineered tissues or forced contraction …

Integrated proteogenomic characterization of clear cell renal cell carcinoma

DJ Clark, SM Dhanasekaran, F Petralia, J Pan, X Song… - Cell, 2019 - cell.com
To elucidate the deregulated functional modules that drive clear cell renal cell carcinoma
(ccRCC), we performed comprehensive genomic, epigenomic, transcriptomic, proteomic …

Multi-omics microsampling for the profiling of lifestyle-associated changes in health

X Shen, R Kellogg, DJ Panyard, N Bararpour… - Nature Biomedical …, 2024 - nature.com
Current healthcare practices are reactive and use limited physiological and clinical
information, often collected months or years apart. Moreover, the discovery and profiling of …

Integrated proteogenomic characterization across major histological types of pituitary neuroendocrine tumors

F Zhang, Q Zhang, J Zhu, B Yao, C Ma, N Qiao, S He… - Cell Research, 2022 - nature.com
Pituitary neuroendocrine tumor (PitNET) is one of the most common intracranial tumors. Due
to its extensive tumor heterogeneity and the lack of high-quality tissues for biomarker …

Integrated proteomic and glycoproteomic characterization of human high-grade serous ovarian carcinoma

Y Hu, J Pan, P Shah, M Ao, SN Thomas, Y Liu, L Chen… - Cell reports, 2020 - cell.com
Many gene products exhibit great structural heterogeneity because of an array of
modifications. These modifications are not directly encoded in the genomic template but …

Different syngeneic tumors show distinctive intrinsic tumor-immunity and mechanisms of actions (MOA) of anti-PD-1 treatment

Y Jin, X An, B Mao, R Sun, R Kumari, X Chen… - Scientific Reports, 2022 - nature.com
Cancers are immunologically heterogeneous. A range of immunotherapies target abnormal
tumor immunity via different mechanisms of actions (MOAs), particularly various tumor …